Philip Hubbard

@philiphubbard.bsky.social

528 Followers 407 Following

Computer science, biology. https://www.janelia.org/people/philip-hubbard https://fediscience.org/@philiphubbard https://orcid.org/0000-0002-6746-5035

Two pages from neuronbridge.janelia.org: a list of matches, then one match with the "View in 3D" button.
Seven images of light microscopy (LM) volumes with matching electron microscopy (EM) skeletons. The system does a quick sweep through the saturation of the LM renderings to pick a value that highlights the match.
11.7K neurons, one for each cell type in the male Drosophila CNS connectome.
False-colored fly neurons appear rapidly one by one. Structures like the protocerebral bridge (PB) and ellipsoid body (EB) are visible before being covered by other neurons.
A bar graph with weather data: precipitation, wind speed, temperature. Touch gestures (indicated by circles) change how the data is shown, e.g., disaggregate from yearly totals to monthly totals, filter out certain months, etc.
Side by side views of male and female fly brains, each showing the same primary neuron pair. Neighboring neurons appear one by one, some the same and some different.
A chain of neurons appears, going from smaller neurons in the fly's brain to a larger neuron along the fly's back. Then more instances of the chain appear.
A dense, circular graph of lines visualizing how data flows in a diffusion neural network.
A C. elegans embryo developing over 426 minutes, with segmentation of nuclei and other organelles, and gene expression.
A dense, circular graph of lines visualizing how data flows in a U-net neural network.
Two sets of connecting fly neurons with fine, wispy arbors.
Two sets of connecting fly neurons with fine, wispy arbors.
Two sets of connecting fly neurons with fine, wispy arbors.
A quick tour through the Beautiful Biology site showing previews of numerous images and videos.
A Unity editor session for a "meadow" world. The bottom shows how the subject fly moves through the world with four display screens around it. The top shows the fly's view warped for display on those four screens.
A fly on a spherical treadmill surrounded by four display screen and a microscope.
97 neuron bodies appearing one after another within the outline of the fly brain.
EPG neurons from the Drosophila central nervous system, shown in four views, each with different colorings of which neuron corresponds to which fly heading angle.
Dense arbors from neurons on one side of a fruit fly's head.
Dense arbors from neurons on a fruit fly's nerve cord.
Eight neurons from the Drosophila fly brain, with dense arborizations and complex shapes.
A user interface showing two merged neurons, which then get distinct colors after the user designates points on each.
Long fibers from neurons at the center of a fruit fly's brain.
Short clips from 19 morphological videos, showing mostly neurons from the Drosophila fruit fly, and also mouse neurons and other cells from mice and humans.
A fly's thorax rotating slowly as a sequence of 89 semi-transparent neurons from the ventral nerve cord appear and disappear rapidly.
A fly brain rotating slowly as a sequence of 141 semi-transparent neurons appear and disappear rapidly.
A desktop application showing volume rendering of the Drosophila nerve cord, which moves and changes color according to user interactions.
A large collection of nuclei followed by an even larger collection of mitochondria.
An electron microscopy image of mouse liver tissue, followed by 3D reconstruction of endothelia cells with holes, hepatocytes and the endoplasmic reticulum.
An interphase HeLa cell's nucleus, Golgi, microtubules, mitochondria, endosomal network, and endoplasmic reticulum, appearing one after another.
A macrophage cell's nucleus, Golgi, mitochondria, endosomal network, vesicles, endoplasmic reticulum and plasma membrane, appearing one after another.
The outline of a mouse brain, gradually filling up from front to back with neurons.
A large group of neurons appearing rapidly one after another, from furthest to nearest.
A large group of neurons appearing rapidly one after another, from innermost to outermost.
A large group of neurons appearing rapidly one after another, from smallest to largest.
The region of the fly's brain by its right eye, with fifteen groups of neurons appearing then disappearing in turn.
The region of the fly's brain by its right eye, with three groups of neurons appearing and disappearing in turn, leaving a few from each group with the synapses that connect them.
Several regions of the nerve cord below the brain of the fly, with groups of neurons from these regions appearing and disappearing.
A stack of 2D microscopy images appearing progressively in a 3D space to define neuron segmentations.
The outlines of three regions in the fly brain, with neurons from each appearing to show how their arbors connect.
The outline of a fan-shaped region in the fly brain, gradually filled with layers of neurons of different types.
A web site for matching LM data to EM data, then an interactive rendering of the LM in magenta and EM in green.
A web site for matching LM data to EM data, then an interactive rendering of the LM in magenta and EM in green.
Six Drosophila neurons and the outline of the overall region, with the description that produces the animation, in natural language and translated to nevoid input JSON by AI.
Twelve neurons and the outline of the overall region, with the description that produces the animation, in natural language and translated to JSON by AI.
Two neurons and their synapses, with the description that produces the animation, in natural language and translated to JSON by AI.
Multiple colored neurons appear, and some synaptic connections between them are shown in electron microscopy images.
Neurons from the Drosophila SMP region, first with shadows from global illumination, then without.